hifiasm hybrid v1 core dump combining UL and HiFi reads

[dbajpp0]

hifiasm 0.25.1-r942

hifiasm_hybrid -o ${base}_asm_PACONT -t 94 --simd-m 2 --ul $ONT --n-hap 2 $HIFI

[M::ul_realignment::] ==> starting UL
[M::ha_opt_update_cov] updated max_n_chain to 505
[M::gen_cov_track::] # bases: 862149475
[M::ha_ct_shrink::7481.15270.98] ==> counted 74428770 distinct minimizer k-mers
[M::ha_ft_ul_gen::7484.17170.95@80.820GB] ==> filtered out 74428770 k-mers occurring -1 or more times
[M::yak_count] collected 9332314 minimizers
[M::ha_pt_ul_gen::7487.21870.94] ==> counted 8343019 distinct minimizer k-mers
[M::ha_ct_shrink::7487.22570.94] ==> counted 8343019 distinct minimizer k-mers
[M::yak_count] collected 9332314 minimizers
[M::ha_pt_ul_gen::7490.78570.93] ==> indexed 9332314 positions
[M::uidx_l_build] Index has been built.
[M::uidx_write] Index has been written.
[M::ha_opt_update_cov] updated max_n_chain to 505
[M::cal_graph_ovlp_binning::27.084] ==> Qualification
[M::write_emask_t] Index has been written.
hifiasm_hybrid: Correct.cpp:22632: void merge_hc_fast_cigar0(overlap_region, overlap_region*): Assertion `xe == xk && ye == yk && e_tot == 0' failed.
Aborted (core dumped)

Program stops after producing those files
asm_PACONT.re.uidx.ucr.bin
asm_PACONT.re.ul.msk.bin
asm_PACONT.re.uidx.bin
asm_PACONT.bp.r_utg.lowQ.bed
asm_PACONT.bp.r_utg.noseq.gfa
asm_PACONT.bp.r_utg.gfa
asm_PACONT.ul.ovlp.bin
asm_PACONT.uidx.bin
asm_PACONT.rec.bin
asm_PACONT.ovlp.reverse.bin
asm_PACONT.ovlp.source.bin
asm_PACONT.ec.bin

I also got a core dump using long nanopore reads with --ont and even combining --ont and --hf. Using hifi and hic works.

Thanks for developing this great software
Joan

[chhylp123]

If the data is not too large, can you share me the bin files?